AlphaFold

Using the predicted ORF sequence of my Find A Gene Project gene I find an 53.5% identity top hit in the AlphaFold database. Below is an image of this top hit predicted structure of an uncharacteristed protein as created in VMD.

Above is a picture with prediction score colouring (red = low prediction score, red, high prediction score), below is the same protein structure, but with any score below 50 removed, and coloured by secondary structure.

Session Information

# Record data on the session
sessionInfo()
## R version 4.1.2 (2021-11-01)
## Platform: x86_64-w64-mingw32/x64 (64-bit)
## Running under: Windows 10 x64 (build 22000)
## 
## Matrix products: default
## 
## locale:
## [1] LC_COLLATE=English_United Kingdom.1252 
## [2] LC_CTYPE=English_United Kingdom.1252   
## [3] LC_MONETARY=English_United Kingdom.1252
## [4] LC_NUMERIC=C                           
## [5] LC_TIME=English_United Kingdom.1252    
## 
## attached base packages:
## [1] stats     graphics  grDevices utils     datasets  methods   base     
## 
## loaded via a namespace (and not attached):
##  [1] digest_0.6.29   R6_2.5.1        jsonlite_1.7.3  magrittr_2.0.2 
##  [5] evaluate_0.14   stringi_1.7.6   rlang_1.0.0     cli_3.2.0      
##  [9] rstudioapi_0.13 jquerylib_0.1.4 bslib_0.3.1     rmarkdown_2.11 
## [13] tools_4.1.2     stringr_1.4.0   xfun_0.29       yaml_2.2.2     
## [17] fastmap_1.1.0   compiler_4.1.2  htmltools_0.5.2 knitr_1.37     
## [21] sass_0.4.0